Commit 313f2381 authored by Midoux Cedric's avatar Midoux Cedric
Browse files

assembly & add-on

parent a0c6f6d1
...@@ -76,6 +76,7 @@ rule metaspades: ...@@ -76,6 +76,7 @@ rule metaspades:
unpack(assembly_input) unpack(assembly_input)
output: output:
contigs = "work/metaSPADES/{reads}/{reads}.contigs.fasta", contigs = "work/metaSPADES/{reads}/{reads}.contigs.fasta",
all_contigs = "work/metaSPADES/{reads}/contigs.fasta",
done = "work/metaSPADES/{reads}/done" done = "work/metaSPADES/{reads}/done"
threads: threads:
20 20
...@@ -101,7 +102,7 @@ rule metaspades: ...@@ -101,7 +102,7 @@ rule metaspades:
"seq " "seq "
"--min-len {params.min_len} " "--min-len {params.min_len} "
"--out-file {output.contigs} " "--out-file {output.contigs} "
"work/metaSPADES/{wildcards.reads}/contigs.fasta " "{output.all_contigs} "
" ; " " ; "
"conda deactivate" "conda deactivate"
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment